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Aliases for SAFB2 Gene

Aliases for SAFB2 Gene

  • Scaffold Attachment Factor B2 2 3 5
  • KIAA0138 4
  • SAF-B2 4

External Ids for SAFB2 Gene

Previous GeneCards Identifiers for SAFB2 Gene

  • GC19M005527
  • GC19M005538
  • GC19M005348

Summaries for SAFB2 Gene

Entrez Gene Summary for SAFB2 Gene

  • The protein encoded by this gene, along with its paralog (scaffold attachment factor B1), is a repressor of estrogen receptor alpha. The encoded protein binds scaffold/matrix attachment region (S/MAR) DNA and is involved in cell cycle regulation, apoptosis, differentiation, the stress response, and regulation of immune genes. [provided by RefSeq, May 2016]

GeneCards Summary for SAFB2 Gene

SAFB2 (Scaffold Attachment Factor B2) is a Protein Coding gene. GO annotations related to this gene include nucleic acid binding and identical protein binding. An important paralog of this gene is SAFB.

UniProtKB/Swiss-Prot for SAFB2 Gene

  • Binds to scaffold/matrix attachment region (S/MAR) DNA. Can function as an estrogen receptor corepressor and can also inhibit cell proliferation.

Gene Wiki entry for SAFB2 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SAFB2 Gene

Genomics for SAFB2 Gene

Regulatory Elements for SAFB2 Gene

Enhancers for SAFB2 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH19F006527 0.4 ENCODE 40.2 -906.6 -906598 6.2 HDGF PKNOX1 ARNT WRNIP1 ARID4B SIN3A YBX1 ZNF2 ZNF766 ZNF143 ZNF557 SNRPEP4 SAFB ENSG00000267571 SAFB2 GTF2F1 RPL36 LOC390877 FLJ25758 MBD3L5
GH19F005689 0.4 ENCODE 37.9 -68.1 -68056 5.0 CREB3L1 ZFP64 DMAP1 YY1 ZNF143 ZNF548 ZNF263 SP3 SSRP1 ZNF610 SNRPEP4 ENSG00000267571 SAFB SAFB2 GTF2F1 VMAC RPL36 LONP1 LOC390877 ACSBG2
GH19F005690 0.6 ENCODE 37.9 -65.4 -65359 0.2 ZNF493 ZEB1 ZNF138 ZNF366 ZNF354C ZNF143 ZNF548 CREM ZNF202 ZNF362 SNRPEP4 ENSG00000267571 SAFB SAFB2 GTF2F1 RPL36 C19orf70 GC19P005701
GH19F004790 0.2 ENCODE 36.1 +832.2 832158 2.4 HDGF PKNOX1 ARNT CREB3L1 WRNIP1 ARID4B SIN3A FEZF1 DMAP1 ZNF2 SAFB2 ENSG00000267030 SAFB DPP9-AS1 ENSG00000267769 SNRPEP4 ENSG00000267255 SH3GL1 ENSG00000268536 ENSG00000269807
GH19F006423 0.5 ENCODE 32.9 -800.6 -800625 3.2 HDGF PKNOX1 ARNT CREB3L1 WRNIP1 SIN3A ARID4B ZNF2 YY1 SLC30A9 SNRPEP4 SAFB2 ZNF557 GTF2F1 SAFB VMAC ENSG00000267571 MIR6791 ENSG00000269680 CLPP
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around SAFB2 on UCSC Golden Path with GeneCards custom track

Promoters for SAFB2 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000140024 846 3201 HDGF PKNOX1 CREB3L1 WRNIP1 ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9

Genomic Location for SAFB2 Gene

Chromosome:
19
Start:
5,586,993 bp from pter
End:
5,624,046 bp from pter
Size:
37,054 bases
Orientation:
Minus strand

Genomic View for SAFB2 Gene

Genes around SAFB2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SAFB2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SAFB2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SAFB2 Gene

Proteins for SAFB2 Gene

  • Protein details for SAFB2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q14151-SAFB2_HUMAN
    Recommended name:
    Scaffold attachment factor B2
    Protein Accession:
    Q14151
    Secondary Accessions:
    • B4DKG3
    • Q8TB13

    Protein attributes for SAFB2 Gene

    Size:
    953 amino acids
    Molecular mass:
    107473 Da
    Quaternary structure:
    • Interacts with SAFB/SAFB1 and SCAM1. Interacts with isoform 2 SRPK1 and inhibits its activity.
    SequenceCaution:
    • Sequence=BAA09487.2; Type=Erroneous initiation; Evidence={ECO:0000305};

    Alternative splice isoforms for SAFB2 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SAFB2 Gene

Post-translational modifications for SAFB2 Gene

  • Ubiquitination at Lys 616
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for SAFB2 Gene

Domains & Families for SAFB2 Gene

Gene Families for SAFB2 Gene

Suggested Antigen Peptide Sequences for SAFB2 Gene

Graphical View of Domain Structure for InterPro Entry

Q14151

UniProtKB/Swiss-Prot:

SAFB2_HUMAN :
  • Contains 1 RRM (RNA recognition motif) domain.
Domain:
  • Contains 1 RRM (RNA recognition motif) domain.
  • Contains 1 SAP domain.
genes like me logo Genes that share domains with SAFB2: view

Function for SAFB2 Gene

Molecular function for SAFB2 Gene

UniProtKB/Swiss-Prot Function:
Binds to scaffold/matrix attachment region (S/MAR) DNA. Can function as an estrogen receptor corepressor and can also inhibit cell proliferation.

Gene Ontology (GO) - Molecular Function for SAFB2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000166 nucleotide binding IEA --
GO:0003676 nucleic acid binding IEA --
GO:0003677 DNA binding IEA --
GO:0003690 double-stranded DNA binding IBA --
GO:0003723 RNA binding IEA --
genes like me logo Genes that share ontologies with SAFB2: view
genes like me logo Genes that share phenotypes with SAFB2: view

Animal Models for SAFB2 Gene

MGI Knock Outs for SAFB2:

Animal Model Products

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , miRNA , Transcription Factor Targets and HOMER Transcription for SAFB2 Gene

Localization for SAFB2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SAFB2 Gene

Cytoplasm. Nucleus.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for SAFB2 Gene COMPARTMENTS Subcellular localization image for SAFB2 gene
Compartment Confidence
extracellular 5
nucleus 5
cytosol 2

Gene Ontology (GO) - Cellular Components for SAFB2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA,IBA --
GO:0005654 nucleoplasm IDA --
GO:0005737 cytoplasm IEA --
GO:0043231 intracellular membrane-bounded organelle IDA --
GO:0070062 extracellular exosome IDA 18570454
genes like me logo Genes that share ontologies with SAFB2: view

Pathways & Interactions for SAFB2 Gene

SuperPathways for SAFB2 Gene

No Data Available

Gene Ontology (GO) - Biological Process for SAFB2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0006357 regulation of transcription from RNA polymerase II promoter IBA --
GO:0050684 regulation of mRNA processing IBA --
GO:0060008 Sertoli cell differentiation IEA --
genes like me logo Genes that share ontologies with SAFB2: view

No data available for Pathways by source and SIGNOR curated interactions for SAFB2 Gene

Transcripts for SAFB2 Gene

Unigene Clusters for SAFB2 Gene

Scaffold attachment factor B2:
Representative Sequences:

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for SAFB2 Gene

ExUns: 1 ^ 2a · 2b ^ 3 ^ 4 ^ 5a · 5b ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13a · 13b ^ 14a · 14b ^ 15 ^ 16 ^ 17 ^ 18a · 18b · 18c ^ 19 ^ 20a ·
SP1:
SP2: - -
SP3:
SP4:
SP5:
SP6:
SP7:
SP8: -

ExUns: 20b ^ 21
SP1:
SP2:
SP3:
SP4:
SP5:
SP6:
SP7:
SP8:

Relevant External Links for SAFB2 Gene

GeneLoc Exon Structure for
SAFB2
ECgene alternative splicing isoforms for
SAFB2

Expression for SAFB2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for SAFB2 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for SAFB2 Gene

This gene is overexpressed in Lavage (10.8), CD8 Tcells (9.0), Testis (8.5), and Peripheral blood mononuclear cells (6.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for SAFB2 Gene



Protein tissue co-expression partners for SAFB2 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of SAFB2 Gene:

SAFB2

SOURCE GeneReport for Unigene cluster for SAFB2 Gene:

Hs.655392

mRNA Expression by UniProt/SwissProt for SAFB2 Gene:

Q14151-SAFB2_HUMAN
Tissue specificity: Expressed at high levels in the CNS and at low levels in the liver. Expressed in a wide number of breast cancer cell lines.
genes like me logo Genes that share expression patterns with SAFB2: view

Primer Products

No data available for mRNA differential expression in normal tissues for SAFB2 Gene

Orthologs for SAFB2 Gene

This gene was present in the common ancestor of animals.

Orthologs for SAFB2 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SAFB2 34 35
  • 99.58 (n)
dog
(Canis familiaris)
Mammalia SAFB2 34 35
  • 88.31 (n)
cow
(Bos Taurus)
Mammalia SAFB2 34 35
  • 85.57 (n)
mouse
(Mus musculus)
Mammalia Safb2 34 16 35
  • 77.17 (n)
rat
(Rattus norvegicus)
Mammalia Safb2 34
  • 75.69 (n)
oppossum
(Monodelphis domestica)
Mammalia -- 35
  • 73 (a)
ManyToMany
-- 35
  • 63 (a)
ManyToMany
platypus
(Ornithorhynchus anatinus)
Mammalia -- 35
  • 51 (a)
ManyToMany
-- 35
  • 50 (a)
ManyToMany
chicken
(Gallus gallus)
Aves -- 35
  • 63 (a)
ManyToMany
-- 35
  • 59 (a)
ManyToMany
lizard
(Anolis carolinensis)
Reptilia -- 35
  • 51 (a)
ManyToMany
tropical clawed frog
(Silurana tropicalis)
Amphibia Str.14461 34
African clawed frog
(Xenopus laevis)
Amphibia Xl.5490 34
zebrafish
(Danio rerio)
Actinopterygii safb 35
  • 47 (a)
OneToMany
fruit fly
(Drosophila melanogaster)
Insecta Saf-B 35
  • 23 (a)
OneToMany
Species where no ortholog for SAFB2 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for SAFB2 Gene

ENSEMBL:
Gene Tree for SAFB2 (if available)
TreeFam:
Gene Tree for SAFB2 (if available)

Paralogs for SAFB2 Gene

Paralogs for SAFB2 Gene

(2) SIMAP similar genes for SAFB2 Gene using alignment to 5 proteins:

genes like me logo Genes that share paralogs with SAFB2: view

Variants for SAFB2 Gene

Sequence variations from dbSNP and Humsavar for SAFB2 Gene

SNP ID Clin Chr 19 pos Sequence Context AA Info Type
rs193920906 Uncertain significance 5,604,866(-) CATGT(C/T)GACAT reference, missense
rs1005892 -- 5,592,628(+) GATCT(C/T)AGAAG intron-variant
rs1005893 -- 5,593,627(+) ATCAC(A/C)AACCC intron-variant
rs10403278 -- 5,606,472(+) aattt(A/T)aaaaa intron-variant
rs10411746 -- 5,622,839(+) TGCGG(C/T)CGCGC upstream-variant-2KB, utr-variant-5-prime

Structural Variations from Database of Genomic Variants (DGV) for SAFB2 Gene

Variant ID Type Subtype PubMed ID
esv3583212 CNV loss 25503493
nsv1062851 CNV gain 25217958
nsv2395 CNV insertion 18451855

Variation tolerance for SAFB2 Gene

Residual Variation Intolerance Score: 10.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.57; 44.63% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SAFB2 Gene

Human Gene Mutation Database (HGMD)
SAFB2
SNPedia medical, phenotypic, and genealogical associations of SNPs for
SAFB2

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SAFB2 Gene

Disorders for SAFB2 Gene

Relevant External Links for SAFB2

Human Genome Epidemiology (HuGE) Navigator
SAFB2
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SAFB2

No disorders were found for SAFB2 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SAFB2 Gene

Publications for SAFB2 Gene

  1. SAFB2, a new scaffold attachment factor homolog and estrogen receptor corepressor. (PMID: 12660241) Townson S.M. … Oesterreich S. (J. Biol. Chem. 2003) 2 3 4 22 64
  2. Low SAFB levels are associated with worse outcome in breast cancer patients. (PMID: 19137425) Hammerich-Hille S. … Oesterreich S. (Breast Cancer Res. Treat. 2010) 3 22 64
  3. SAFB1 mediates repression of immune regulators and apoptotic genes in breast cancer cells. (PMID: 19901029) Hammerich-Hille S. … Oesterreich S. (J. Biol. Chem. 2010) 3 22 64
  4. The enzymatic activity of SR protein kinases 1 and 1a is negatively affected by interaction with scaffold attachment factors B1 and 2. (PMID: 19674106) Tsianou D. … Georgatsou E. (FEBS J. 2009) 3 4 64
  5. No germline mutations in supposed tumour suppressor genes SAFB1 and SAFB2 in familial breast cancer with linkage to 19p. (PMID: 19077293) Bergman A. … Nordling M. (BMC Med. Genet. 2008) 3 22 64

Products for SAFB2 Gene

Sources for SAFB2 Gene

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